eastgenomics eggd_dias_batch issues

eastgenomics / eggd_dias_batch

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initial unarchive check doesn't use CNV job ID for excluded intervals bed check

#221 jethror1 opened 3 hours ago
0
panels and single genes in same report don't have a nice separator like multiple genes

#220 jethror1 opened 4 weeks ago
0
IN-930 - update dias_batch.py

#219 jethror1 closed 1 month ago
0
Release v3.2.0 -> main

#218 jethror1 closed 1 month ago
2
IN-930 - combine unarchiving inputs

#217 jethror1 closed 1 month ago
1
IN-930 - update default unarchive patterns

#216 jethror1 closed 1 month ago
0
IN-930 - fix #214 single gene report name

#215 jethror1 closed 1 month ago
1
Single gene file naming

#214 rklocke closed 1 month ago
2
IN-930 add new input unarchive only

#213 jethror1 closed 1 month ago
0
IN-930 - add multiqc html pattern to defaults.py

#212 jethror1 closed 1 month ago
0
IN-930 - update readme

#211 jethror1 closed 1 month ago
0
IN-930 - update .coveragerc path

#210 jethror1 closed 1 month ago
0
IN-930 - fix #196 better unarchival checking

#209 jethror1 closed 1 month ago
1
DI-930 fix #207 strip whitespace from inputs

#208 jethror1 closed 1 month ago
1
strip leading / trailing whitespace from user string inputs

#207 Addy81 closed 1 month ago
0
Improve description of non-reference file placeholders in the config file design section of README

#206 growland2 closed 1 month ago
0
Unarchive tag incorrect

#205 chrispyatt closed 2 months ago
2
prettier error message

#204 jethror1 opened 2 months ago
0
DI-930 fix #199 - improve summary text

#203 jethror1 closed 4 months ago
1
DI-930 fix #198 - allow invalid samples in manifest when subsetting

#202 jethror1 closed 4 months ago
1
DI-930 fix #197 - fix skipping samples with missing test codes

#201 jethror1 closed 4 months ago
0
DI-930 fix #195 - correctly check all archived files

#200 jethror1 closed 4 months ago
1
Mismatch in total samples run in summary report

#199 jethror1 closed 1 month ago
1
Subset + manifest validation

#198 Addy81 closed 1 month ago
1
lack of test code in manifest not flagged

#197 chrispyatt closed 1 month ago
1
Ensure all files unarchived

#196 jethror1 closed 1 month ago
1
batch does not unarchive all files for reanalysis

#195 chrispyatt closed 1 month ago
7
V3.1.0 release

#194 chrispyatt closed 6 months ago
1
switch split_tests to default to true

#193 jethror1 closed 6 months ago
0
v3.1.0 - fix reports summary writing

#192 jethror1 closed 7 months ago
1
write_summary_report fails when trying to record excluded file IDs

#191 chrispyatt closed 6 months ago
0
v3.1.0 - handle manifest with project

#190 jethror1 closed 7 months ago
0
Launches all reports but fails at the end and doesn't output a summary

#189 Addy81 closed 6 months ago
0
v3.1.0 - add running mode to reports folder output name

#188 jethror1 closed 7 months ago
1
Add an option to ignore samples in manifest

#187 Emma-MacK opened 7 months ago
3
mosaic reports output directory doesn't include version/datetime info

#186 chrispyatt closed 6 months ago
3
v3.1.0 - handle new genepanels

#185 jethror1 closed 7 months ago
0
v3.1.0 - handle dynamic inputs

#184 jethror1 closed 7 months ago
0
v3.1.0 - better handle research use test code

#183 jethror1 closed 7 months ago
0
v3.1.0 - error on multiple configs

#182 jethror1 closed 7 months ago
2
ResearchUse code breaks batch

#181 chrispyatt closed 6 months ago
5
v3.1.0 - add optional multiqc_report input for eggd_artemis

#180 jethror1 closed 7 months ago
1
pass multiqc report as an input

#179 kjwinfield closed 6 months ago
0
automate CNV indications stripping

#178 kjwinfield opened 8 months ago
2
v3.1.0 - tidy up manifest logging

#177 jethror1 closed 8 months ago
0
v3.1.0 - add details on exclude_controls to readme

#176 jethror1 closed 8 months ago
0
v3.1.0 make assay optional, improve logging

#175 jethror1 closed 8 months ago
1
v3.1.0 fix trailing blank line

#174 jethror1 closed 8 months ago
1
add samples specified to exclude to logs

#173 jethror1 closed 6 months ago
0
Readme suggests -iassay is optional

#172 Addy81 closed 6 months ago
1